Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 95 of 292
Found at i:29030973 original size:27 final size:27
Alignment explanation
Indices: 29030933--29030986 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
29030923 AAGTACAGCC
* *
29030933 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
29030960 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
29030987 TCACATGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:29041497 original size:25 final size:25
Alignment explanation
Indices: 29041468--29041517 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
29041458 AAAATGAAGT
29041468 GACGTTAATTTTCCATAAAAATAGA
1 GACGTTAATTTTCCATAAAAATAGA
29041493 GACGTTAATTTTCCATAAAAATAGA
1 GACGTTAATTTTCCATAAAAATAGA
29041518 CTCATACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (25 bp):
GACGTTAATTTTCCATAAAAATAGA
Found at i:29043606 original size:23 final size:23
Alignment explanation
Indices: 29043574--29043617 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
29043564 AAAATTTCAC
* *
29043574 ACATGTAATTTCACATATAATAG
1 ACATGAAATTTAACATATAATAG
*
29043597 ACATGAAATTTAACATTTAAT
1 ACATGAAATTTAACATATAAT
29043618 TATTTTTGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (23 bp):
ACATGAAATTTAACATATAATAG
Found at i:29044237 original size:28 final size:28
Alignment explanation
Indices: 29044197--29044264 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
29044187 AAACAAAATC
* * * *
29044197 CGCACACACAGTGC-CCACTGACCGATCT
1 CGCACACATAGTGCTCAACTGA-AGAACT
*
29044225 CGCACACATAGTGCTCAATTGAAGAACT
1 CGCACACATAGTGCTCAACTGAAGAACT
29044253 CGCACACATAGT
1 CGCACACATAGT
29044265 TCCTCATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 29 0.85
29 5 0.15
ACGTcount: A:0.31, C:0.34, G:0.18, T:0.18
Consensus pattern (28 bp):
CGCACACATAGTGCTCAACTGAAGAACT
Found at i:29044580 original size:40 final size:40
Alignment explanation
Indices: 29044523--29044681 Score: 241
Period size: 40 Copynumber: 4.0 Consensus size: 40
29044513 GGATTTTGTC
* * *
29044523 CCAGCACGAATGC-CTTCGGGGCATTA-CCCGGATACATCA
1 CCAGCACGAATGCTCTTCGGGAC-TTAGCCCGGATATAACA
*
29044562 CCAGCACAAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
*
29044602 CCAGCACGAATGCTCTTCGGGACTTAGCCTGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
*
29044642 CCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
29044682 TACTGAACTT
Statistics
Matches: 110, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 15 0.14
40 95 0.86
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
Found at i:29047257 original size:46 final size:46
Alignment explanation
Indices: 29047186--29047448 Score: 240
Period size: 46 Copynumber: 5.7 Consensus size: 46
29047176 AGATTTGTGT
29047186 GCCAGTGTAAGACATGTCTGGGACATG-ATCGGCCATATTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGATA
*
29047231 GCCAATGTAAGACCATGTCTGGGACATGGCATCGG---TATTGA-GATGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATATT-ATGAT-A
* ** *
29047277 GGGCTAGTGTAAGACATGTCTGGGACATGCATTAGCCATATTATGAGA
1 --GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGATA
* ** *
29047325 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCC-TCAAGATGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAT-ATTATGATA
* * ** *
29047371 GCCAGTGTCAGACATGTCTGCGG-CATGCGTCGG-C-TACGA-GATGT
1 GCCAGTGTAAGACATGTCTG-GGACATGCATCGGCCATATTATGAT-A
*
29047415 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC
29047449 ACGCTTACAT
Statistics
Matches: 179, Mismatches: 23, Indels: 32
0.76 0.10 0.14
Matches are distributed among these distances:
43 4 0.02
44 30 0.17
45 21 0.12
46 84 0.47
47 17 0.09
48 17 0.09
49 6 0.03
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGATA
Found at i:29047305 original size:93 final size:92
Alignment explanation
Indices: 29047189--29047357 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 92
29047179 TTTGTGTGCC
* *
29047189 AGTGTAAGACATGTCTGGGACATG-ATCGGCCATATTATGATAGCCAATGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAATGTAAGA-CATGTCTGG
29047253 GACATGGCATCGGTATTGAGATGAGGGCT
65 GACAT-GCATCGGTATTGAGATGAGGGCT
* * *
29047282 AGTGTAAGACATGTCTGGGACATGCATTAGCCATATTATGAGAGCCAGTGTAAGACATGTTTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAATGTAAGACATGTCTGGG
29047347 ACATGCATCGG
66 ACATGCATCGG
29047358 CCTCAAGATG
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
92 7 0.10
93 37 0.53
94 26 0.37
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAATGTAAGACATGTCTGGG
ACATGCATCGGTATTGAGATGAGGGCT
Found at i:29047473 original size:136 final size:138
Alignment explanation
Indices: 29047186--29047445 Score: 307
Period size: 139 Copynumber: 1.9 Consensus size: 138
29047176 AGATTTGTGT
* **
29047186 GCCAGTGTAAGACATGTCTGGGACATGATCGGCCATATTATGATAGCCAATGTAAGACCATGTCT
1 GCCAATGTAAGACATGTCTGGGACATGATCGGCCATAAGATGATAGCCAATGTAAGACCATGTCT
* * *
29047251 GGGACATGGCATCGGTATTGAGATGAGGGCTAGTGTAAGACATGTCTGGGACATGCATTAGCCAT
66 GGGACATGGCATCGGTATCGAGAT-AGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAG
*
29047316 ATTATGAGA
130 ATTATCAGA
* * * * *
29047325 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCC-TCAAGATGTTAGCCAGTGTCAGA-CATGT
1 GCCAATGTAAGACATGTCTGGGACATG-ATCGGCCAT-AAGATGATAGCCAATGTAAGACCATGT
* *
29047388 CTGCGG-CAT-GCGTCGGCTA-CGAGAT-GTGCTAGTGTAAGACATGTCTGGGACATGCATC
64 CTG-GGACATGGCATCGG-TATCGAGATAGGGCTAGTGTAAGACATGTCTGGGACATGCATC
29047446 GGCACGCTTA
Statistics
Matches: 107, Mismatches: 10, Indels: 11
0.84 0.08 0.09
Matches are distributed among these distances:
136 31 0.29
138 11 0.10
139 40 0.37
140 25 0.23
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (138 bp):
GCCAATGTAAGACATGTCTGGGACATGATCGGCCATAAGATGATAGCCAATGTAAGACCATGTCT
GGGACATGGCATCGGTATCGAGATAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAGA
TTATCAGA
Found at i:29053782 original size:40 final size:40
Alignment explanation
Indices: 29053701--29053906 Score: 180
Period size: 40 Copynumber: 5.2 Consensus size: 40
29053691 GGATTTAACT
* * * * * *
29053701 GGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGCCC
1 GGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCC
* ** * * *
29053741 GGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCC
1 GGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCC
* * * * *
29053781 GGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCC
*
29053821 GGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCC
1 GGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCC
*** * * *
29053861 GGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGCCC
1 GGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGCCC
29053901 GGATAT
1 GGATAT
29053907 CATTCCAATG
Statistics
Matches: 137, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 135 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCC
Found at i:29053837 original size:80 final size:80
Alignment explanation
Indices: 29053725--29053906 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
29053715 GCTCGATTGT
* * *** * * * **
29053725 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
29053790 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
29053805 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
29053870 TACTAGCATAATTGC
66 AACTAGCACAAATGC
29053885 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
29053907 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:29061850 original size:80 final size:80
Alignment explanation
Indices: 29061756--29061936 Score: 211
Period size: 80 Copynumber: 2.3 Consensus size: 80
29061746 GCTCGATTGT
* * *** * * * **
29061756 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
29061821 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
29061836 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
29061901 TACTAGCATAATTGC
66 AACTAGCACAAATGC
29061916 CTTCGGGACTTAGCCC-GATAT
1 CTTCGGGACTTAGCCCGGATAT
29061937 CATTCCAATG
Statistics
Matches: 84, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
79 5 0.06
80 79 0.94
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:29061899 original size:40 final size:40
Alignment explanation
Indices: 29061730--29061936 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
29061720 CGGGATTTAA
** * * * * *
29061730 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
29061770 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * *
29061810 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
**
29061850 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
29061890 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACGAA-TGCCTTCGGGTCTTAGC
29061930 CC-GATAT
1 CCGGATAT
29061937 CATTCCAATG
Statistics
Matches: 138, Mismatches: 28, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
39 7 0.05
40 131 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:29069543 original size:30 final size:30
Alignment explanation
Indices: 29069499--29069587 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
29069489 CAAAGATAAC
29069499 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
29069528 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * * *
29069558 AAGAGATCAAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
29069588 CGATACTATG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 9 0.18
30 38 0.78
31 2 0.04
ACGTcount: A:0.58, C:0.15, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:29069547 original size:15 final size:15
Alignment explanation
Indices: 29069499--29069578 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
29069489 CAAAGATAAC
*
29069499 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
29069513 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
29069528 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
29069543 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* * *
29069558 AAGAGATCAAGGATA
1 AAGAAATCCAGAATA
29069573 AAGAAA
1 AAGAAA
29069579 CCCAAGATAC
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
14 9 0.17
15 44 0.81
16 1 0.02
ACGTcount: A:0.60, C:0.12, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:29069587 original size:15 final size:15
Alignment explanation
Indices: 29069510--29069587 Score: 63
Period size: 15 Copynumber: 5.2 Consensus size: 15
29069500 AGAAAACCGA
*
29069510 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
29069525 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
*
29069539 AATAAAGAAATCC-AG
1 -ATAAAGAAACCCAAG
* *
29069554 AATAAAGAGA-TCAAGG
1 -ATAAAGAAACCCAA-G
29069570 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
29069585 ATA
1 ATA
29069588 CGATACTATG
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
14 3 0.06
15 44 0.86
16 4 0.08
ACGTcount: A:0.58, C:0.14, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:29087783 original size:45 final size:45
Alignment explanation
Indices: 29087719--29087826 Score: 207
Period size: 45 Copynumber: 2.4 Consensus size: 45
29087709 AATTAGATGG
29087719 CATTTGAAAATGTCAGGATTAGGGTCCATTTACTATATAAAAACA
1 CATTTGAAAATGTCAGGATTAGGGTCCATTTACTATATAAAAACA
*
29087764 CATTTGAAAATGTCAGGATTAGGGTCTATTTACTATATAAAAACA
1 CATTTGAAAATGTCAGGATTAGGGTCCATTTACTATATAAAAACA
29087809 CATTTGAAAATGTCAGGA
1 CATTTGAAAATGTCAGGA
29087827 GTCATCACAC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (45 bp):
CATTTGAAAATGTCAGGATTAGGGTCCATTTACTATATAAAAACA
Found at i:29089555 original size:24 final size:25
Alignment explanation
Indices: 29089502--29089607 Score: 74
Period size: 24 Copynumber: 4.3 Consensus size: 25
29089492 AAGCTCCTCC
29089502 TGAGCTGATAAACAGTAAGCTCTAA
1 TGAGCTGATAAACAGTAAGCTCTAA
* * * *
29089527 CGAGCTGA-AAATAGTAAGCTTTGA
1 TGAGCTGATAAACAGTAAGCTCTAA
* * * *
29089551 TGAGCTGA-GATCAGTAAGGTCTTA
1 TGAGCTGATAAACAGTAAGCTCTAA
* * *
29089575 TGAGCTAATATATCGGTAAGCTC-ATA
1 TGAGCTGATA-AACAGTAAGCTCTA-A
29089601 TGAGCTG
1 TGAGCTG
29089608 CGGTGAGTCC
Statistics
Matches: 61, Mismatches: 17, Indels: 5
0.73 0.20 0.06
Matches are distributed among these distances:
24 37 0.61
25 7 0.11
26 17 0.28
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (25 bp):
TGAGCTGATAAACAGTAAGCTCTAA
Found at i:29094089 original size:17 final size:17
Alignment explanation
Indices: 29094043--29094091 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
29094033 TTTTTATCAT
*
29094043 TTATCATTTGTCGGGCA
1 TTATCATTTATCGGGCA
* *
29094060 TTATAATTGATCGGGCA
1 TTATCATTTATCGGGCA
29094077 CTT-TCATTTATCGGG
1 -TTATCATTTATCGGG
29094092 ATTCAATAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 24 0.92
18 2 0.08
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.41
Consensus pattern (17 bp):
TTATCATTTATCGGGCA
Found at i:29100623 original size:54 final size:54
Alignment explanation
Indices: 29100543--29100662 Score: 224
Period size: 54 Copynumber: 2.2 Consensus size: 54
29100533 AAAAAAAAAG
29100543 AAAGAAAG-AAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAGAA
1 AAAGAAAGAAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAGAA
29100596 AAAGAAAGAAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAGAA
1 AAAGAAAGAAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAGAA
*
29100650 AAAGAAGGAAAAA
1 AAAGAAAGAAAAA
29100663 GAGCTTTGAG
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
53 8 0.12
54 57 0.88
ACGTcount: A:0.53, C:0.10, G:0.21, T:0.17
Consensus pattern (54 bp):
AAAGAAAGAAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAGAA
Found at i:29101049 original size:40 final size:39
Alignment explanation
Indices: 29100993--29101117 Score: 162
Period size: 40 Copynumber: 3.2 Consensus size: 39
29100983 TTGATAACTT
*
29100993 GGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATATCC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
29101032 GGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAACC
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * *
29101072 AAGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATATCC
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
29101112 GGCTAA
1 GGCTAA
29101118 ACTCCAAAGG
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
39 7 0.09
40 67 0.91
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:29101393 original size:22 final size:21
Alignment explanation
Indices: 29101352--29101395 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
29101342 GAATGTGCAT
29101352 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
29101374 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
29101396 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:29107783 original size:53 final size:53
Alignment explanation
Indices: 29107709--29107827 Score: 220
Period size: 53 Copynumber: 2.2 Consensus size: 53
29107699 AAAAAAAAAG
29107709 AAAGAAAGAAAAAAAAAGCTCTCACGTTGTTCTTGGCCGAATAGAAGAAAGAA
1 AAAGAAAGAAAAAAAAAGCTCTCACGTTGTTCTTGGCCGAATAGAAGAAAGAA
*
29107762 AAAGAAAGAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAGAA
1 AAAGAAAGAAAAAAAAAGCTCTCACGTTGTTCTTGGCCGAATAGAAGAAAGAA
*
29107815 AAAGAAGGAAAAA
1 AAAGAAAGAAAAA
29107828 GAGCTTTGAG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 64 1.00
ACGTcount: A:0.52, C:0.11, G:0.21, T:0.16
Consensus pattern (53 bp):
AAAGAAAGAAAAAAAAAGCTCTCACGTTGTTCTTGGCCGAATAGAAGAAAGAA
Found at i:29108213 original size:40 final size:39
Alignment explanation
Indices: 29108158--29108282 Score: 171
Period size: 40 Copynumber: 3.2 Consensus size: 39
29108148 TTGATAACTT
29108158 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
29108197 GGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAACC
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * *
29108237 AAGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATATCC
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
29108277 GGCTAA
1 GGCTAA
29108283 ACTCCGAAGG
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
39 7 0.09
40 68 0.91
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:29108559 original size:22 final size:21
Alignment explanation
Indices: 29108518--29108561 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
29108508 GAATGTGCAT
29108518 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
29108540 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
29108562 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:29110883 original size:18 final size:17
Alignment explanation
Indices: 29110860--29110893 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
29110850 TAGCTGTGCC
29110860 GTTTTCTCTTCTGTATTA
1 GTTTTCTCTTCT-TATTA
29110878 GTTTTCTCTTCTTATT
1 GTTTTCTCTTCTTATT
29110894 TTCTTCCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.65
Consensus pattern (17 bp):
GTTTTCTCTTCTTATTA
Found at i:29112045 original size:25 final size:25
Alignment explanation
Indices: 29112016--29112063 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
29112006 TTATAATATG
* * *
29112016 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
29112041 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
29112064 ATTTATACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:29112114 original size:9 final size:9
Alignment explanation
Indices: 29112102--29112158 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
29112092 TATGATAAAC
29112102 ATGATATGT
1 ATGATATGT
*
29112111 ATGATATGCAC
1 ATGATATG--T
*
29112122 ATGACATGT
1 ATGATATGT
*
29112131 ATGATATGCAC
1 ATGATATG--T
29112142 ATGATATGT
1 ATGATATGT
29112151 ATGATATG
1 ATGATATG
29112159 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:29112125 original size:20 final size:20
Alignment explanation
Indices: 29112100--29112162 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
29112090 ATTATGATAA
29112100 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
29112120 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
29112140 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
29112160 ACA
1 ACA
29112163 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:29112306 original size:24 final size:24
Alignment explanation
Indices: 29112217--29112334 Score: 154
Period size: 23 Copynumber: 5.0 Consensus size: 24
29112207 GAGGAAGTGC
*
29112217 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
29112241 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
29112264 -AAAGGGATTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
29112287 AAAAAGGGCTT-TGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
29112311 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
29112335 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
23 50 0.59
24 19 0.22
25 16 0.19
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:29112503 original size:31 final size:31
Alignment explanation
Indices: 29112468--29112531 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
29112458 CATTTACAGT
29112468 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
29112499 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
29112530 AA
1 AA
29112532 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:29116405 original size:40 final size:39
Alignment explanation
Indices: 29116256--29116398 Score: 196
Period size: 39 Copynumber: 3.6 Consensus size: 39
29116246 TGTGTATGAA
*
29116256 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
29116295 TGTCCGAGTTGTGATATCCGGGCTAAGCCCGAAGGGAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
29116334 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
* * * *
29116374 TGTGCGGGTTATCATAACCGGGCTA
1 TGTGCGAGTTGTGATATCCGGGCTA
29116399 TGTCCCGGAG
Statistics
Matches: 91, Mismatches: 12, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 61 0.67
40 30 0.33
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.26
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:29118526 original size:24 final size:24
Alignment explanation
Indices: 29118494--29118542 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
29118484 GGATTAGAAA
29118494 CGAAAGGAATTCCTTGATCTTAAG
1 CGAAAGGAATTCCTTGATCTTAAG
29118518 CGAAAGGAATTCCTTGATCTTAAG
1 CGAAAGGAATTCCTTGATCTTAAG
29118542 C
1 C
29118543 AAGGTTCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (24 bp):
CGAAAGGAATTCCTTGATCTTAAG
Found at i:29121865 original size:40 final size:39
Alignment explanation
Indices: 29121744--29121897 Score: 209
Period size: 39 Copynumber: 3.9 Consensus size: 39
29121734 GTGTAATGAA
*
29121744 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
29121783 TGTGCGAGTTGCGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
29121822 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
* * * * *
29121862 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGG
29121898 TGTTTGAACG
Statistics
Matches: 103, Mismatches: 11, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 62 0.60
40 41 0.40
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:29121883 original size:79 final size:79
Alignment explanation
Indices: 29121744--29121897 Score: 213
Period size: 79 Copynumber: 1.9 Consensus size: 79
29121734 GTGTAATGAA
*
29121744 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGCGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGCGATAACCGGGCTAA
29121809 G-CCCGAAGGCAAT
66 GTCCCGAAGGCAAT
* * * * *
29121822 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATC-ATAACCGGGCT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTT-GCGATAACCGGGCT
*
29121886 ATGTCCCGAAGG
64 AAGTCCCGAAGG
29121898 TGTTTGAACG
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
78 25 0.38
79 32 0.48
80 9 0.14
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.25
Consensus pattern (79 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGCGATAACCGGGCTAA
GTCCCGAAGGCAAT
Found at i:29124569 original size:25 final size:25
Alignment explanation
Indices: 29124540--29124587 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
29124530 TTATAACATG
* * *
29124540 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
29124565 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
29124588 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:29124654 original size:20 final size:20
Alignment explanation
Indices: 29124631--29124669 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
29124621 TAAACATGGT
29124631 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
29124651 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
29124670 TGTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:29124776 original size:24 final size:23
Alignment explanation
Indices: 29124720--29124885 Score: 235
Period size: 23 Copynumber: 7.0 Consensus size: 23
29124710 GAGGAAGTGA
29124720 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
29124743 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
29124766 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
29124790 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
29124814 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
29124837 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
29124861 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
29124885 A
1 A
29124886 TGATAAAGCA
Statistics
Matches: 130, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
23 63 0.48
24 57 0.44
25 10 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:29124836 original size:71 final size:70
Alignment explanation
Indices: 29124720--29124884 Score: 260
Period size: 71 Copynumber: 2.3 Consensus size: 70
29124710 GAGGAAGTGA
*
29124720 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCA
29124785 GTTATC
65 GTTATC
*
29124791 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTTTGCCCCAG
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAG
*
29124856 TTATT
66 TTATC
*
29124861 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
29124885 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
70 32 0.36
71 56 0.64
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (70 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAG
TTATC
Found at i:29125112 original size:31 final size:31
Alignment explanation
Indices: 29125077--29125140 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
29125067 CGTTTACAGT
*
29125077 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
29125108 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
29125139 AA
1 AA
29125141 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:29132691 original size:25 final size:25
Alignment explanation
Indices: 29132662--29132709 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
29132652 TTATAACATG
* *
29132662 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
29132687 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
29132710 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:29132792 original size:11 final size:11
Alignment explanation
Indices: 29132756--29132811 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
29132746 CATGGTATGT
29132756 ATGATATGCAC
1 ATGATATGCAC
* *
29132767 ATGACATG--T
1 ATGATATGCAC
29132776 ATGATATGCAC
1 ATGATATGCAC
*
29132787 ATGATATG--T
1 ATGATATGCAC
29132796 ATGATATGCAC
1 ATGATATGCAC
29132807 ATGAT
1 ATGAT
29132812 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:29132811 original size:20 final size:20
Alignment explanation
Indices: 29132745--29132811 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
29132735 GATTTGATAA
*
29132745 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
29132765 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
29132785 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
29132805 ACATGAT
1 ACATGAT
29132812 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:29132920 original size:24 final size:23
Alignment explanation
Indices: 29132861--29133005 Score: 211
Period size: 23 Copynumber: 6.2 Consensus size: 23
29132851 GAGGAAGTGA
*
29132861 AAAAGGGCTTATGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
29132884 TAAA-GGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
29132906 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
29132930 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
29132954 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
29132977 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
29133001 AAAAG
1 AAAAG
29133006 AGGCAGGCCT
Statistics
Matches: 111, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
22 17 0.15
23 47 0.42
24 47 0.42
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:29132981 original size:70 final size:70
Alignment explanation
Indices: 29132861--29133005 Score: 238
Period size: 70 Copynumber: 2.1 Consensus size: 70
29132851 GAGGAAGTGA
* *
29132861 AAAAGGGCTTATGCCCTAGTTATTAAAGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
29132926 TTATC
66 TTATC
*
29132931 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAA-GGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
*
29132995 GTTATT
65 GTTATC
29133001 AAAAG
1 AAAAG
29133006 AGGCAGGCCT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
70 52 0.74
71 18 0.26
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (70 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
TTATC
Found at i:29133020 original size:70 final size:69
Alignment explanation
Indices: 29132861--29133023 Score: 222
Period size: 70 Copynumber: 2.3 Consensus size: 69
29132851 GAGGAAGTGA
* *
29132861 AAAAGGGCTTATGCCCTAGTTATTAAAGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
1 AAAAGGGC-TACGCCCCAGTTATTAAAGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
29132926 TTATC
65 TTATC
*
29132931 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTTTGCCCCA
1 AAAAGGGC-TACGCCCCAGTTATTAAA-GGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
*
29132995 GTTATT
64 GTTATC
*
29133001 AAAAGAGGC-AGGCCTCCAGTTAT
1 AAAAG-GGCTACGCC-CCAGTTAT
29133024 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
69 4 0.05
70 60 0.71
71 21 0.25
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (69 bp):
AAAAGGGCTACGCCCCAGTTATTAAAGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGT
TATC
Found at i:29133253 original size:31 final size:31
Alignment explanation
Indices: 29133217--29133280 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
29133207 CGTTTACAGT
* *
29133217 AAAGGCTTCGGCCTAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
29133248 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
29133279 AA
1 AA
29133281 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:29134228 original size:46 final size:46
Alignment explanation
Indices: 29134140--29134247 Score: 137
Period size: 46 Copynumber: 2.3 Consensus size: 46
29134130 TTATTGAGCT
*
29134140 AAATAGTAAGCTCTTTCGAGCTGAATCGGTAAGATCCAATGAGCAC
1 AAATAGTAAGCTCTTACGAGCTGAATCGGTAAGATCCAATGAGCAC
* * * **
29134186 AAATAATAAGCTCTTACGAGCTGAATGGGTAAGCT-CATATGAGCTG
1 AAATAGTAAGCTCTTACGAGCTGAATCGGTAAGATCCA-ATGAGCAC
*
29134232 ATATAGTAAGCTCTTA
1 AAATAGTAAGCTCTTA
29134248 TGAGTTGTGA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 2 0.04
46 51 0.96
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (46 bp):
AAATAGTAAGCTCTTACGAGCTGAATCGGTAAGATCCAATGAGCAC
Found at i:29134249 original size:23 final size:23
Alignment explanation
Indices: 29134192--29134251 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
29134182 GCACAAATAA
* *
29134192 TAAGCTCTTACGAGCTGAATGGG
1 TAAGCTCTTATGAGCTGAATGAG
*
29134215 TAAGCTCATATGAGCTGATAT-AG
1 TAAGCTCTTATGAGCTGA-ATGAG
29134238 TAAGCTCTTATGAG
1 TAAGCTCTTATGAG
29134252 TTGTGATGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 30 0.94
24 2 0.06
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (23 bp):
TAAGCTCTTATGAGCTGAATGAG
Found at i:29135741 original size:19 final size:19
Alignment explanation
Indices: 29135706--29135743 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
29135696 CGGTGGGGCC
*
29135706 CACGAGCCCATTGGGCCCA
1 CACGAGCCCATTCGGCCCA
29135725 CACGA-CCCATTTCGGCCCA
1 CACGAGCCCA-TTCGGCCCA
29135744 AAATCAGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.21, C:0.45, G:0.21, T:0.13
Consensus pattern (19 bp):
CACGAGCCCATTCGGCCCA
Found at i:29137592 original size:30 final size:30
Alignment explanation
Indices: 29137553--29137609 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
29137543 TTTTATAAGT
29137553 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
29137583 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
29137610 AACAACAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:29137683 original size:47 final size:49
Alignment explanation
Indices: 29137577--29137683 Score: 143
Period size: 44 Copynumber: 2.2 Consensus size: 49
29137567 ACTTAAAAAT
*
29137577 ATTTAAAATTTATATTTCATATATTAAAATATTAACAACAAATTATAATA
1 ATTT-AAATTTATATTTCATATACTAAAATATTAACAACAAATTATAATA
*
29137627 ATTT--TTTTATA-TTC-T-TACTAAAATATTAACAACAAATTATAATA
1 ATTTAAATTTATATTTCATATACTAAAATATTAACAACAAATTATAATA
29137671 ATTTCAAATTTAT
1 ATTT-AAATTTAT
29137684 TTAAATGCAT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
44 32 0.63
45 1 0.02
46 3 0.06
47 11 0.22
50 4 0.08
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (49 bp):
ATTTAAATTTATATTTCATATACTAAAATATTAACAACAAATTATAATA
Found at i:29140709 original size:13 final size:13
Alignment explanation
Indices: 29140693--29140720 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
29140683 ATTTCCACAA
29140693 CACTTTTCAAAAG
1 CACTTTTCAAAAG
29140706 CACTTTTCAAAAG
1 CACTTTTCAAAAG
29140719 CA
1 CA
29140721 TTGCCAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.25, G:0.07, T:0.29
Consensus pattern (13 bp):
CACTTTTCAAAAG
Found at i:29146663 original size:21 final size:21
Alignment explanation
Indices: 29146638--29146698 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
29146628 ATATTGTTAT
*
29146638 ACATGATATGGCATGGTATGC
1 ACATGATATGGCATGATATGC
**
29146659 ACATGATATGTTATGATATGC
1 ACATGATATGGCATGATATGC
29146680 ACATGATAT-GCTATGATAT
1 ACATGATATGGC-ATGATAT
29146699 ACTCATTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.34
Consensus pattern (21 bp):
ACATGATATGGCATGATATGC
Found at i:29146668 original size:11 final size:11
Alignment explanation
Indices: 29146638--29146690 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
29146628 ATATTGTTAT
29146638 ACATGATATG-
1 ACATGATATGC
* *
29146648 GCATGGTATGC
1 ACATGATATGC
29146659 ACATGATATG-
1 ACATGATATGC
**
29146669 TTATGATATGC
1 ACATGATATGC
29146680 ACATGATATGC
1 ACATGATATGC
29146691 TATGATATAC
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
10 16 0.48
11 17 0.52
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (11 bp):
ACATGATATGC
Found at i:29157773 original size:25 final size:25
Alignment explanation
Indices: 29157745--29157793 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
29157735 TTATAATATG
* *
29157745 AAAAATGACTATTTTTCCCCTAGGT
1 AAAAATGACCATTTTACCCCTAGGT
29157770 AAAAATGACCATTTTACCCCTAGG
1 AAAAATGACCATTTTACCCCTAGG
29157794 GTTTGATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (25 bp):
AAAAATGACCATTTTACCCCTAGGT
Found at i:29157855 original size:21 final size:21
Alignment explanation
Indices: 29157830--29157890 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
29157820 ATATTGTTAT
*
29157830 ACATGATATGGCATGGTATGC
1 ACATGATATGGCATGATATGC
**
29157851 ACATGATATGTTATGATATGC
1 ACATGATATGGCATGATATGC
29157872 ACATGATAT-GCTATGATAT
1 ACATGATATGGC-ATGATAT
29157891 ACTCATTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.34
Consensus pattern (21 bp):
ACATGATATGGCATGATATGC
Found at i:29157860 original size:11 final size:11
Alignment explanation
Indices: 29157830--29157882 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
29157820 ATATTGTTAT
29157830 ACATGATATG-
1 ACATGATATGC
* *
29157840 GCATGGTATGC
1 ACATGATATGC
29157851 ACATGATATG-
1 ACATGATATGC
**
29157861 TTATGATATGC
1 ACATGATATGC
29157872 ACATGATATGC
1 ACATGATATGC
29157883 TATGATATAC
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
10 16 0.48
11 17 0.52
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (11 bp):
ACATGATATGC
Found at i:29162618 original size:27 final size:26
Alignment explanation
Indices: 29162582--29162689 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 26
29162572 AGCGTCCTCC
*
29162582 TGGCTATGCCACAATTATCTGATCTGG
1 TGGCTCTGCCAC-ATTATCTGATCTGG
*
29162609 TGGCTCTGCCACATATATCTGTTCTGG
1 TGGCTCTGCCACAT-TATCTGATCTGG
* *
29162636 TGGTTCTGCCACGATTATCTGTATTTGG
1 TGGCTCTGCCAC-ATTATCTG-ATCTGG
* * * *
29162664 TGACTCTGTCATATTATCTGTTCTGG
1 TGGCTCTGCCACATTATCTGATCTGG
29162690 CAGTCATGCT
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 6 0.09
27 47 0.70
28 14 0.21
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.40
Consensus pattern (26 bp):
TGGCTCTGCCACATTATCTGATCTGG
Found at i:29168432 original size:3 final size:3
Alignment explanation
Indices: 29168424--29168451 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
29168414 TAAACTAAAC
29168424 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
29168452 CATCCAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:29169602 original size:23 final size:24
Alignment explanation
Indices: 29169516--29169606 Score: 71
Period size: 23 Copynumber: 3.8 Consensus size: 24
29169506 GGACTCACCA
* *
29169516 CAGCTCATAAGAGCTTACTGATATAT
1 CAGCTCATATGAGCTTAC-CATAT-T
* * *
29169542 CAACTCGA-AAGAGCTTACTATATT
1 CAGCTC-ATATGAGCTTACCATATT
*
29169566 TAGCTCAT-TGGAGCTTACCAT-TT
1 CAGCTCATAT-GAGCTTACCATATT
29169589 CAGCTCATATGAGCTTAC
1 CAGCTCATATGAGCTTAC
29169607 TGTTCAGCTT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
23 18 0.33
24 16 0.30
25 4 0.07
26 15 0.28
27 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (24 bp):
CAGCTCATATGAGCTTACCATATT
Found at i:29169615 original size:22 final size:21
Alignment explanation
Indices: 29169587--29169657 Score: 70
Period size: 23 Copynumber: 3.2 Consensus size: 21
29169577 AGCTTACCAT
29169587 TTCAGCTCATATGAGCTTACTG
1 TTCAGCTCATA-GAGCTTACTG
* *
29169609 TTCAGCTTGATAGAGCTTACCG
1 TTCAGC-TCATAGAGCTTACTG
* *
29169631 TTTTAGCTCAAAAGAGCTTACTG
1 -TTCAGCTC-ATAGAGCTTACTG
29169654 TTCA
1 TTCA
29169658 TCAGCTCAGG
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
22 19 0.49
23 20 0.51
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (21 bp):
TTCAGCTCATAGAGCTTACTG
Found at i:29169646 original size:23 final size:23
Alignment explanation
Indices: 29169516--29169651 Score: 69
Period size: 23 Copynumber: 5.8 Consensus size: 23
29169506 GGACTCACCA
* *
29169516 CAGCTCATAAGAGCTTACTGATATAT
1 CAGCTCAAAAGAGCTTAC-CAT-T-T
* * *
29169542 CAACTCGAAAGAGCTTACTATATT
1 CAGCTCAAAAGAGCTTACCAT-TT
* ***
29169566 TAGCTCATTGGAGCTTACCATTT
1 CAGCTCAAAAGAGCTTACCATTT
* *
29169589 CAGCTCATATGAGCTTA-C-TGTT
1 CAGCTCAAAAGAGCTTACCAT-TT
** * *
29169611 CAGCTTGATAGAGCTTACCGTTT
1 CAGCTCAAAAGAGCTTACCATTT
*
29169634 TAGCTCAAAAGAGCTTAC
1 CAGCTCAAAAGAGCTTAC
29169652 TGTTCATCAG
Statistics
Matches: 84, Mismatches: 23, Indels: 9
0.72 0.20 0.08
Matches are distributed among these distances:
21 1 0.01
22 15 0.18
23 33 0.39
24 16 0.19
25 4 0.05
26 15 0.18
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (23 bp):
CAGCTCAAAAGAGCTTACCATTT
Found at i:29174003 original size:44 final size:42
Alignment explanation
Indices: 29173882--29174025 Score: 148
Period size: 44 Copynumber: 3.4 Consensus size: 42
29173872 GTCTCAAATG
* * * * * *
29173882 TGGTCTTACATGTAATCAAATATCAATGCCATTGTCCTAGACA
1 TGGTCTTACACGAAATCAAATA-CGATGCCAATGTCCCAGAGA
* **
29173925 GGGTCTTACACGAAATCAAATACGATGCTGATGTCCCAGAGA
1 TGGTCTTACACGAAATCAAATACGATGCCAATGTCCCAGAGA
29173967 TGGTCTTACACGCAAATCATAAGT-CGATGCCAATGTCCCAGACG-
1 TGGTCTTACACG-AAATCA-AA-TACGATGCCAATGTCCCAGA-GA
29174011 TGGTCTTACACGAAA
1 TGGTCTTACACGAAA
29174026 ACACATATCG
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
42 25 0.29
43 28 0.33
44 30 0.35
45 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (42 bp):
TGGTCTTACACGAAATCAAATACGATGCCAATGTCCCAGAGA
Found at i:29177167 original size:6 final size:6
Alignment explanation
Indices: 29177156--29177240 Score: 75
Period size: 6 Copynumber: 13.8 Consensus size: 6
29177146 TATCAAAACT
* * *
29177156 AGAATC AGAATC AGAATC AGAATC AAAATC A-AGTGAC AGAATC AGAACC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
29177205 AGAATC AGTATC AAGTAA-C AGAATC AAAATC AGAAT
1 AGAATC AGAATC -AG-AATC AGAATC AGAATC AGAAT
29177241 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
5 4 0.06
6 52 0.81
7 5 0.08
8 3 0.05
ACGTcount: A:0.52, C:0.16, G:0.15, T:0.16
Consensus pattern (6 bp):
AGAATC
Found at i:29177198 original size:25 final size:25
Alignment explanation
Indices: 29177165--29177236 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
29177155 TAGAATCAGA
29177165 ATCAGAATCAGAATCAAAATCAAGT
1 ATCAGAATCAGAATCAAAATCAAGT
* *
29177190 GA-CAGAATCAGAACCAGAATC-AGT
1 -ATCAGAATCAGAATCAAAATCAAGT
29177214 ATCAAGTAA-CAGAATCAAAATCA
1 ATC-AG-AATCAGAATCAAAATCA
29177237 GAATGTGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
23 1 0.03
24 4 0.11
25 30 0.79
26 3 0.08
ACGTcount: A:0.51, C:0.18, G:0.14, T:0.17
Consensus pattern (25 bp):
ATCAGAATCAGAATCAAAATCAAGT
Found at i:29177198 original size:31 final size:31
Alignment explanation
Indices: 29177161--29177240 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
29177151 AAACTAGAAT
*
29177161 CAGAATCAGAATCAGAATCAAAATCAAGTGA
1 CAGAATCAGAATCAGAATCAAAATCAAGTAA
* **
29177192 CAGAATCAGAACCAGAATCAGTATCAAGTAA
1 CAGAATCAGAATCAGAATCAAAATCAAGTAA
*
29177223 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
29177241 GTGAATGCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.51, C:0.17, G:0.15, T:0.16
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAAAATCAAGTAA
Found at i:29177665 original size:27 final size:27
Alignment explanation
Indices: 29177635--29177777 Score: 162
Period size: 27 Copynumber: 5.3 Consensus size: 27
29177625 GGGGCAAAAT
* * *
29177635 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
29177662 GGTAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
29177689 GATAATTCTACCCTA-TAGTGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
* *
29177716 AGTAATTCTACCCTACAAGGTTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
29177743 GGTAATTCTACCCTACAATGGGTATTTC
1 GGTAATTCTACCCTACAA-GGGTATTTC
*
29177771 GATAATT
1 GGTAATT
29177778 TCACAAATCA
Statistics
Matches: 96, Mismatches: 17, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
26 1 0.01
27 79 0.82
28 16 0.17
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:29177796 original size:55 final size:54
Alignment explanation
Indices: 29177635--29177804 Score: 132
Period size: 54 Copynumber: 3.1 Consensus size: 54
29177625 GGGGCAAAAT
* * * * * * *
29177635 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTATC-CTATAGGGGTATTTC
1 GGTAATTCTACCCTACAATGGTATTTCAGTAATTCTA-CAATACAGGGGTATTTC
* * * ** * *
29177689 GATAATTCTACCCTATAGTGGTATTTCAGTAATTCTACCCTACAAGGTTATTTC
1 GGTAATTCTACCCTACAATGGTATTTCAGTAATTCTACAATACAGGGGTATTTC
*
29177743 GGTAATTCTACCCTACAATGGGTATTTC-GATAATT-TCACAA-ATCAGGGGTATTTT
1 GGTAATTCTACCCTACAAT-GGTATTTCAG-TAATTCT-ACAATA-CAGGGGTATTTC
29177798 GGTAATT
1 GGTAATT
29177805 TTACAAACCA
Statistics
Matches: 92, Mismatches: 19, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
53 1 0.01
54 60 0.65
55 31 0.34
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (54 bp):
GGTAATTCTACCCTACAATGGTATTTCAGTAATTCTACAATACAGGGGTATTTC
Found at i:29177803 original size:27 final size:27
Alignment explanation
Indices: 29177762--29177860 Score: 119
Period size: 27 Copynumber: 3.7 Consensus size: 27
29177752 ACCCTACAAT
* * *
29177762 GGGTATTTCGATAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAATCAG
*
29177789 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATCAG
***
29177816 GGGTATTTTGGTAATTTTATTGATC-G
1 GGGTATTTTGGTAATTTTACAAATCAG
29177842 AGGGTATTTTGGTAATTTT
1 -GGGTATTTTGGTAATTTT
29177861 GTAAACTAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.02
27 62 0.98
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAG
Found at i:29177874 original size:54 final size:54
Alignment explanation
Indices: 29177789--29177928 Score: 149
Period size: 54 Copynumber: 2.6 Consensus size: 54
29177779 CACAAATCAG
** * * ** *
29177789 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATT-GATCGA
1 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTCAGTAATTTT-TTAAATCGA
29177843 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTCAGTAATTTTTTAAATCGA
1 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTCAGTAATTTTTTAAATCGA
*** *
29177897 GGGTAAAATGGTAATTCTGTAAA-TCAAGGGTA
1 GGGTATTTTGGTAATTTTGTAAACT-AAGGGTA
29177929 AAATGGTAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
53 3 0.04
54 70 0.96
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTCAGTAATTTTTTAAATCGA
Found at i:29177899 original size:27 final size:27
Alignment explanation
Indices: 29177789--29178068 Score: 132
Period size: 27 Copynumber: 10.7 Consensus size: 27
29177779 CACAAATCAG
** *
29177789 GGGTATTTTGGTAATTTTACAAA-CCA
1 GGGTATTTTGGTAATTTTTTAAATCGA
*
29177815 GGGGTATTTTGGTAATTTTATT-GATCGA
1 -GGGTATTTTGGTAATTTT-TTAAATCGA
* *
29177843 GGGTATTTTGGTAATTTTGTAAA-CTAA
1 GGGTATTTTGGTAATTTTTTAAATC-GA
**
29177870 GGGTATTTCAGTAATTTTTTAAATCGA
1 GGGTATTTTGGTAATTTTTTAAATCGA
*** * * *
29177897 GGGTAAAATGGTAATTCTGTAAATCAA
1 GGGTATTTTGGTAATTTTTTAAATCGA
*** * *
29177924 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTTTAAATCGA
*** * *
29177951 GGGTAAAATGGTAATTTTGTGAATCGA
1 GGGTATTTTGGTAATTTTTTAAATCGA
*** *
29177978 GGGTAAAATGGTAA--TTCT--ATC--
1 GGGTATTTTGGTAATTTTTTAAATCGA
* * **
29177999 --TTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTTTAAATCGA
* * *
29178024 GGATATTTGGGTAATTTTATAAATCGA
1 GGGTATTTTGGTAATTTTTTAAATCGA
*
29178051 GGGTACTTTGGTAATTTT
1 GGGTATTTTGGTAATTTT
29178069 ACAAGTTGAG
Statistics
Matches: 204, Mismatches: 36, Indels: 26
0.77 0.14 0.10
Matches are distributed among these distances:
19 7 0.03
21 2 0.01
23 6 0.03
25 3 0.01
26 2 0.01
27 181 0.89
28 3 0.01
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTTTAAATCGA
Found at i:29177938 original size:54 final size:54
Alignment explanation
Indices: 29177880--29177995 Score: 187
Period size: 54 Copynumber: 2.1 Consensus size: 54
29177870 GGGTATTTCA
* *
29177880 GTAATTTTTTAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAATG
* * *
29177934 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTGAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAATG
29177988 GTAATTCT
1 GTAATTCT
29177996 ATCTTATTTC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.34
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAATG
Found at i:29178079 original size:27 final size:27
Alignment explanation
Indices: 29178000--29178094 Score: 111
Period size: 27 Copynumber: 3.5 Consensus size: 27
29177990 AATTCTATCT
* *
29178000 TATTTCGGTAATTTTACAAATCGAGGA
1 TATTTGGGTAATTTTACAAATCGAGGG
*
29178027 TATTTGGGTAATTTTATAAATCGAGGG
1 TATTTGGGTAATTTTACAAATCGAGGG
* *
29178054 TACTTT-GGTAATTTTACAAGTTGAGGG
1 TA-TTTGGGTAATTTTACAAATCGAGGG
**
29178081 TATTTCAGTAATTT
1 TATTTGGGTAATTT
29178095 GGTAAACTAA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.05
27 53 0.90
28 3 0.05
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
TATTTGGGTAATTTTACAAATCGAGGG
Found at i:29180038 original size:6 final size:6
Alignment explanation
Indices: 29180020--29180113 Score: 77
Period size: 6 Copynumber: 15.3 Consensus size: 6
29180010 AAGAAACATT
* * *
29180020 ATCAGA A-CTAGA ATCAGA ATCAGA ACCAGA ATCAAA ATCA-A GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
29180069 ATCAGA ATCAGA ATCAGT ATCAAGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATC-AG-A ATCAGA ATCAGA ATCAGA AT
29180114 GTGAATGCAA
Statistics
Matches: 71, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
5 5 0.07
6 57 0.80
7 6 0.08
8 3 0.04
ACGTcount: A:0.51, C:0.17, G:0.15, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:29180072 original size:31 final size:31
Alignment explanation
Indices: 29180034--29180113 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
29180024 GAACTAGAAT
* *
29180034 CAGAATCAGAACCAGAATCAAAATCAAGTGA
1 CAGAATCAGAATCAGAATCAAAATCAAGTAA
**
29180065 CAGAATCAGAATCAGAATCAGTATCAAGTAA
1 CAGAATCAGAATCAGAATCAAAATCAAGTAA
*
29180096 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
29180114 GTGAATGCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.51, C:0.17, G:0.15, T:0.16
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAAAATCAAGTAA
Found at i:29180074 original size:25 final size:24
Alignment explanation
Indices: 29180038--29180109 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 24
29180028 TAGAATCAGA
29180038 ATCAGAACCAGAATCAAAATCAAGT
1 ATCAGAA-CAGAATCAAAATCAAGT
*
29180063 GA-CAGAATCAGAATCAGAATC-AGT
1 -ATCAGAA-CAGAATCAAAATCAAGT
29180087 ATCAAGTAACAGAATCAAAATCA
1 ATC-AG-AACAGAATCAAAATCA
29180110 GAATGTGAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 1 0.03
24 4 0.10
25 31 0.79
26 3 0.08
ACGTcount: A:0.51, C:0.18, G:0.14, T:0.17
Consensus pattern (24 bp):
ATCAGAACAGAATCAAAATCAAGT
Found at i:29183429 original size:37 final size:37
Alignment explanation
Indices: 29183379--29183456 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
29183369 ATTTAATACC
29183379 TTTAACTATTAGAACAACACTTTTAAACTTTACACGA
1 TTTAACTATTAGAACAACACTTTTAAACTTTACACGA
**
29183416 TTTAACTATTAGAACAACACTTTTTCACTTTACACGA
1 TTTAACTATTAGAACAACACTTTTAAACTTTACACGA
29183453 TTTA
1 TTTA
29183457 GTCTTTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.38
Consensus pattern (37 bp):
TTTAACTATTAGAACAACACTTTTAAACTTTACACGA
Found at i:29183858 original size:21 final size:21
Alignment explanation
Indices: 29183834--29183894 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
29183824 ATGAAGTAAT
29183834 TAGATTCTTAATCTTTTATCA
1 TAGATTCTTAATCTTTTATCA
*
29183855 TAGATTCTTAATCATTTATCA
1 TAGATTCTTAATCTTTTATCA
* *
29183876 TAGATTCCTGATCTTTTAT
1 TAGATTCTTAATCTTTTAT
29183895 TGTTAAGTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.51
Consensus pattern (21 bp):
TAGATTCTTAATCTTTTATCA
Found at i:29190842 original size:10 final size:10
Alignment explanation
Indices: 29190829--29190885 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
29190819 AAAATATTAT
29190829 AAAATAATTC
1 AAAATAATTC
*
29190839 AAAATAATTTT
1 AAAATAA-TTC
29190850 AAAA-AATTC
1 AAAATAATTC
29190859 AAAATAATT-
1 AAAATAATTC
**
29190868 TTAA-AATTC
1 AAAATAATTC
29190877 AAAATAATT
1 AAAATAATT
29190886 ATAAAAATTC
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
8 4 0.11
9 10 0.27
10 17 0.46
11 6 0.16
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATAATTC
Found at i:29190844 original size:20 final size:20
Alignment explanation
Indices: 29190819--29190901 Score: 102
Period size: 20 Copynumber: 4.2 Consensus size: 20
29190809 TAGTCTCTCT
29190819 AAAAT-ATTATAAAATAATTC
1 AAAATAATTATAAAA-AATTC
*
29190839 AAAATAATTTTAAAAAATTC
1 AAAATAATTATAAAAAATTC
*
29190859 AAAATAATT-T-TAAAATTC
1 AAAATAATTATAAAAAATTC
29190877 AAAATAATTAT-AAAAATTCC
1 AAAATAATTATAAAAAATT-C
29190897 AAAAT
1 AAAAT
29190902 TTATATTTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.28
19 8 0.14
20 25 0.44
21 8 0.14
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATAATTATAAAAAATTC
Found at i:29190935 original size:9 final size:9
Alignment explanation
Indices: 29190923--29190957 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
29190913 TAAAAATTCA
29190923 TAAAAAATT
1 TAAAAAATT
*
29190932 TAAAAAATC
1 TAAAAAATT
29190941 TAAAAATATT
1 TAAAAA-ATT
29190951 TAAAAAA
1 TAAAAAA
29190958 ATTTCTAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (9 bp):
TAAAAAATT
Found at i:29190935 original size:19 final size:19
Alignment explanation
Indices: 29190911--29190957 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
29190901 TTTATATTTT
*
29190911 TTTAAAAATTCATAAAAA-A
1 TTTAAAAAATC-TAAAAATA
29190930 TTTAAAAAATCTAAAAATA
1 TTTAAAAAATCTAAAAATA
29190949 TTTAAAAAA
1 TTTAAAAAA
29190958 ATTTCTAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 6 0.23
19 20 0.77
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (19 bp):
TTTAAAAAATCTAAAAATA
Found at i:29190937 original size:10 final size:10
Alignment explanation
Indices: 29190914--29190961 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
29190904 ATATTTTTTT
*
29190914 AAAAATTCATA
1 AAAAATTTA-A
29190925 AAAAATTT-A
1 AAAAATTTAA
*
29190934 AAAAATCTAA
1 AAAAATTTAA
*
29190944 AAATATTTAA
1 AAAAATTTAA
29190954 AAAAATTT
1 AAAAATTT
29190962 CTAGAATAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
9 8 0.26
10 16 0.52
11 7 0.23
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:29195733 original size:71 final size:71
Alignment explanation
Indices: 29195649--29195812 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
29195639 CGATTTGTCT
29195649 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
29195714 CTTTCA
66 CTTTCA
* *
29195720 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
29195785 CTTTCA
66 CTTTCA
29195791 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
29195813 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:29195850 original size:71 final size:70
Alignment explanation
Indices: 29195649--29195846 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
29195639 CGATTTGTCT
* * * * *
29195649 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
29195714 CTTTCA
65 CTTTCA
* * * *
29195720 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
29195785 CTTTCA
65 CTTTCA
* *
29195791 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
29195847 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:29199304 original size:24 final size:23
Alignment explanation
Indices: 29199274--29199377 Score: 77
Period size: 23 Copynumber: 4.4 Consensus size: 23
29199264 TATTAGCTTG
*
29199274 TAAGAGCTTACTATTTTCAGCTCG
1 TAAGAGCTTACT-TTTTCAGCTCA
** *
29199298 TTGGAGCTTACTGTTTCAGCTCA
1 TAAGAGCTTACTTTTTCAGCTCA
* **
29199321 TAAAAGCTTACTGTTTTCAGCTTG
1 TAAGAGCTTACT-TTTTCAGCTCA
**
29199345 TCAA-AGCTTACCGTTTCAGCTCA
1 T-AAGAGCTTACTTTTTCAGCTCA
29199368 -ATAGAGCTTA
1 TA-AGAGCTTA
29199378 TTGTCAATCA
Statistics
Matches: 62, Mismatches: 14, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
21 1 0.02
22 1 0.02
23 32 0.52
24 26 0.42
25 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (23 bp):
TAAGAGCTTACTTTTTCAGCTCA
Found at i:29199318 original size:23 final size:23
Alignment explanation
Indices: 29199268--29199366 Score: 90
Period size: 24 Copynumber: 4.2 Consensus size: 23
29199258 CCAATATATT
* * *
29199268 AGCTTGTAAGAGCTTACTATTTTC
1 AGCTCGTAAAAGCTTACT-GTTTC
***
29199292 AGCTCGTTGGAGCTTACTGTTTC
1 AGCTCGTAAAAGCTTACTGTTTC
*
29199315 AGCTCATAAAAGCTTACTGTTTTC
1 AGCTCGTAAAAGCTTACTG-TTTC
* * *
29199339 AGCTTGTCAAAGCTTACCGTTTC
1 AGCTCGTAAAAGCTTACTGTTTC
29199362 AGCTC
1 AGCTC
29199367 AATAGAGCTT
Statistics
Matches: 61, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
23 27 0.44
24 34 0.56
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.37
Consensus pattern (23 bp):
AGCTCGTAAAAGCTTACTGTTTC
Found at i:29199376 original size:47 final size:47
Alignment explanation
Indices: 29199274--29199377 Score: 129
Period size: 47 Copynumber: 2.2 Consensus size: 47
29199264 TATTAGCTTG
*** *
29199274 TAAGAGCTTACTATTTTCAGCTCGTTGGAGCTTACTGTTTCAGCTCA
1 TAAGAGCTTACTATTTTCAGCTCGTCAAAGCTTACCGTTTCAGCTCA
* * *
29199321 TAAAAGCTTACTGTTTTCAGCTTGTCAAAGCTTACCGTTTCAGCTCA
1 TAAGAGCTTACTATTTTCAGCTCGTCAAAGCTTACCGTTTCAGCTCA
29199368 -ATAGAGCTTA
1 TA-AGAGCTTA
29199378 TTGTCAATCA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 1 0.02
47 47 0.98
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (47 bp):
TAAGAGCTTACTATTTTCAGCTCGTCAAAGCTTACCGTTTCAGCTCA
Found at i:29201231 original size:43 final size:42
Alignment explanation
Indices: 29201084--29201240 Score: 119
Period size: 43 Copynumber: 3.7 Consensus size: 42
29201074 TGTGATTTCG
* * *
29201084 TGTAAGACCACGTCTGGGACATTGGCATCGAATTCTAT-TTTACG
1 TGTAAGACCACGTCTGGGACAGTGGCATCG-ATT-T-TGATTACA
* * *
29201128 TGTAAGACCATGTCTAGGACA-TCGGCATC--TTATATGATTTCA
1 TGTAAGACCACGTCTGGGACAGT-GGCATCGATT-T-TGATTACA
*
29201170 TGTAAGACC-CTGTTTGGGACAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCGAT-TTTGATTACA
*
29201213 TCTAAGACCACGTCTGGGAC-GTTGGCAT
1 TGTAAGACCACGTCTGGGACAG-TGGCAT
29201241 TGTATATGTT
Statistics
Matches: 92, Mismatches: 12, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
41 5 0.05
42 27 0.29
43 31 0.34
44 28 0.30
45 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGATTTTGATTACA
Found at i:29205535 original size:38 final size:38
Alignment explanation
Indices: 29205493--29205589 Score: 124
Period size: 38 Copynumber: 2.6 Consensus size: 38
29205483 GGGCTTAAGA
* *
29205493 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAAAATATCCAGGATAAAT
**
29205531 CCCGCAGGCTTCGTGCTGGTATTATATCCAGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTAAAATATCCAGGATAAAT
* *
29205569 CCCACAGG-TGTAGTGCTGGTA
1 CCCGCAGGCT-TCGTGCTGGTA
29205590 TTATATTCGG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
37 1 0.02
38 51 0.98
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.27
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTAAAATATCCAGGATAAAT
Found at i:29209307 original size:28 final size:28
Alignment explanation
Indices: 29209273--29209328 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
29209263 ATAAATTGTG
*
29209273 GGAGATGATTTAGAAGTTGAATAAATTA
1 GGAGATGATTTAGAAGCTGAATAAATTA
29209301 GGAGATGATTTAGAAGCTGAATAAATTA
1 GGAGATGATTTAGAAGCTGAATAAATTA
29209329 TGTAATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.43, C:0.02, G:0.25, T:0.30
Consensus pattern (28 bp):
GGAGATGATTTAGAAGCTGAATAAATTA
Found at i:29211571 original size:27 final size:28
Alignment explanation
Indices: 29211515--29211584 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
29211505 AAATTTGTAC
29211515 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
29211543 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
29211570 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
29211585 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:29214081 original size:38 final size:38
Alignment explanation
Indices: 29214038--29214130 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 38
29214028 TAAGGACCCA
*
29214038 CAGGCTTCGTGCTGGTAAAATATCCAGGTTAAATCCCG
1 CAGGCTTCGTGCTGGTAAAATATCCAGGATAAATCCCG
* * ** *
29214076 TAGGCTTCGTACTGGTATTATATCCGGGATAAATCCCG
1 CAGGCTTCGTGCTGGTAAAATATCCAGGATAAATCCCG
* *
29214114 CAGGCGTAGTGCTGGTA
1 CAGGCTTCGTGCTGGTA
29214131 TTATATTCGG
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (38 bp):
CAGGCTTCGTGCTGGTAAAATATCCAGGATAAATCCCG
Found at i:29214131 original size:38 final size:38
Alignment explanation
Indices: 29214046--29214141 Score: 111
Period size: 38 Copynumber: 2.5 Consensus size: 38
29214036 CACAGGCTTC
** * * * * *
29214046 GTGCTGGTAAAATATCCAGGTTAAATCCCGTAGGCTTC
1 GTGCTGGTATTATATCCGGGATAAATCCCGCAGGCGTA
*
29214084 GTACTGGTATTATATCCGGGATAAATCCCGCAGGCGTA
1 GTGCTGGTATTATATCCGGGATAAATCCCGCAGGCGTA
*
29214122 GTGCTGGTATTATATTCGGG
1 GTGCTGGTATTATATCCGGG
29214142 CCTTCGTGCC
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (38 bp):
GTGCTGGTATTATATCCGGGATAAATCCCGCAGGCGTA
Found at i:29214257 original size:43 final size:43
Alignment explanation
Indices: 29214134--29214245 Score: 197
Period size: 43 Copynumber: 2.6 Consensus size: 43
29214124 GCTGGTATTA
*
29214134 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
29214177 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGGTGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
29214220 TGTTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
29214246 GTAATGTCGG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.09, C:0.27, G:0.35, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:29219637 original size:40 final size:40
Alignment explanation
Indices: 29219577--29219681 Score: 147
Period size: 40 Copynumber: 2.6 Consensus size: 40
29219567 CATTTGAATG
* * *
29219577 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTGATT
* * **
29219617 ATATTCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTCTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTGATT
29219657 ATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
29219682 ATTGTGCAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTGATT
Found at i:29219711 original size:40 final size:40
Alignment explanation
Indices: 29219579--29219728 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 40
29219569 TTTGAATGAT
* * * * ** * *
29219579 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTAT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTCTCAA
* * * *
29219619 ATTCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTCTTAT
1 ATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTCTCAA
29219659 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTAC-CAA
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTT-CTCAA
* *
29219699 ATCTGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGC
29219729 TTGTGGTTAT
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 2 0.02
40 88 0.94
41 4 0.04
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTCTCAA
Found at i:29219739 original size:80 final size:80
Alignment explanation
Indices: 29219577--29219744 Score: 187
Period size: 80 Copynumber: 2.1 Consensus size: 80
29219567 CATTTGAATG
* * * ** *
29219577 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATTCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTGACCAAATTCGGGCTAAGACCCGAAGGCA
*
29219642 TTCGTGCGAGTTCTT
66 TTCGTGCGAGTGCTT
* * *
29219657 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAA-TCTGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTGACCAAATTC-GGGCTAAGACCCGAAGGC
** *
29219721 AATT-GTGCTTGTGGTT
65 -ATTCGTGCGAGTGCTT
29219737 ATATCCGG
1 ATATCCGG
29219745 TTAAATCCCG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
79 2 0.03
80 68 0.93
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTGACCAAATTCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTGCTT
Found at i:29220578 original size:33 final size:33
Alignment explanation
Indices: 29220536--29220601 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
29220526 ATAAATTATA
29220536 TAAATGAACCTTGATGAATCTACTTTCATATGG
1 TAAATGAACCTTGATGAATCTACTTTCATATGG
29220569 TAAATGAACCTTGATGAATCTACTTTCATATGG
1 TAAATGAACCTTGATGAATCTACTTTCATATGG
29220602 AAGAAACGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (33 bp):
TAAATGAACCTTGATGAATCTACTTTCATATGG
Found at i:29221926 original size:16 final size:16
Alignment explanation
Indices: 29221905--29221961 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
29221895 AATGCTCATT
29221905 TGGTTCTGTCTGATGA
1 TGGTTCTGTCTGATGA
* * * *
29221921 TGGTTCAGTAATGCTCA
1 TGGTTCTGT-CTGATGA
29221938 TTTGGTTCTGTCTGATGA
1 --TGGTTCTGTCTGATGA
29221956 TGGTTC
1 TGGTTC
29221962 AGTTTTAGCA
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
16 14 0.47
17 4 0.13
18 4 0.13
19 8 0.27
ACGTcount: A:0.14, C:0.14, G:0.28, T:0.44
Consensus pattern (16 bp):
TGGTTCTGTCTGATGA
Found at i:29221941 original size:35 final size:35
Alignment explanation
Indices: 29221895--29221964 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
29221885 GCGTGCGATG
29221895 AATGCTCATTTGGTTCTGTCTGATGATGGTTCAGT
1 AATGCTCATTTGGTTCTGTCTGATGATGGTTCAGT
29221930 AATGCTCATTTGGTTCTGTCTGATGATGGTTCAGT
1 AATGCTCATTTGGTTCTGTCTGATGATGGTTCAGT
29221965 TTTAGCAGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.17, C:0.14, G:0.26, T:0.43
Consensus pattern (35 bp):
AATGCTCATTTGGTTCTGTCTGATGATGGTTCAGT
Found at i:29224554 original size:29 final size:29
Alignment explanation
Indices: 29224498--29224587 Score: 139
Period size: 29 Copynumber: 3.1 Consensus size: 29
29224488 CACATACCTA
*
29224498 TATATGGCCCACTA-GGCCTAATCACATT
1 TATATGGCCCACTAGGGCCAAATCACATT
29224526 TATATGGCCCACTAGGGCCAAATCACATT
1 TATATGGCCCACTAGGGCCAAATCACATT
*
29224555 TATATGGCCCA-TCAGGACCAAATCACATT
1 TATATGGCCCACT-AGGGCCAAATCACATT
29224584 TATA
1 TATA
29224588 ATCATGCTCA
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
28 15 0.26
29 43 0.74
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (29 bp):
TATATGGCCCACTAGGGCCAAATCACATT
Found at i:29238822 original size:28 final size:28
Alignment explanation
Indices: 29238790--29238859 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
29238780 ATAGTAAGTC
29238790 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
29238818 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
29238846 CGCACACTTAGTGC
1 CGCACACTTAGTGC
29238860 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:29242840 original size:24 final size:23
Alignment explanation
Indices: 29242799--29242864 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 23
29242789 ATCTCGTTGG
29242799 AGCTTACTGTTTTAGCTCATAAA
1 AGCTTACTGTTTTAGCTCATAAA
* * *
29242822 AGCTTACTATTTTTAGCTCGTCAA
1 AGCTTACT-GTTTTAGCTCATAAA
* *
29242846 AGCTTACAGTTTCAGCTCA
1 AGCTTACTGTTTTAGCTCA
29242865 ATAGAGCATA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
23 16 0.46
24 19 0.54
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (23 bp):
AGCTTACTGTTTTAGCTCATAAA
Found at i:29244542 original size:40 final size:40
Alignment explanation
Indices: 29244491--29244583 Score: 168
Period size: 40 Copynumber: 2.3 Consensus size: 40
29244481 ACGGGATTTT
*
29244491 CACTTCGGTGCCCCTGTATACACTTTAGTGTCCCTGTTCA
1 CACTACGGTGCCCCTGTATACACTTTAGTGTCCCTGTTCA
*
29244531 CACTACGGTGCCCCTGTATACACTTTGGTGTCCCTGTTCA
1 CACTACGGTGCCCCTGTATACACTTTAGTGTCCCTGTTCA
29244571 CACTACGGTGCCC
1 CACTACGGTGCCC
29244584 TTATTTGCAC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.15, C:0.34, G:0.19, T:0.31
Consensus pattern (40 bp):
CACTACGGTGCCCCTGTATACACTTTAGTGTCCCTGTTCA
Found at i:29244573 original size:20 final size:20
Alignment explanation
Indices: 29244491--29244583 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
29244481 ACGGGATTTT
29244491 CACTTCGGTGCCCCTGTATA
1 CACTTCGGTGCCCCTGTATA
** *
29244511 CACTTTAGTGTCCCTGT-TCA
1 CACTTCGGTGCCCCTGTAT-A
*
29244531 CACTACGGTGCCCCTGTATA
1 CACTTCGGTGCCCCTGTATA
* *
29244551 CACTTTGGTGTCCCTGT-TCA
1 CACTTCGGTGCCCCTGTAT-A
*
29244571 CACTACGGTGCCC
1 CACTTCGGTGCCC
29244584 TTATTTGCAC
Statistics
Matches: 57, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.04
20 54 0.95
21 1 0.02
ACGTcount: A:0.15, C:0.34, G:0.19, T:0.31
Consensus pattern (20 bp):
CACTTCGGTGCCCCTGTATA
Found at i:29247764 original size:42 final size:43
Alignment explanation
Indices: 29247703--29247811 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 43
29247693 TATTTGAGAC
**
29247703 TTACGTGTAAGACCATGTCTAGGACA-TCAGCA-TCGTATTTGA
1 TTACGTGTAAGACCATGTCTAGGACAGT-AGCATTAATATTTGA
* * * *
29247745 TTTCGTGTAAAACCCTGTCTAGGACAGTGGCATTAATATTTGA
1 TTACGTGTAAGACCATGTCTAGGACAGTAGCATTAATATTTGA
29247788 TTACGTGTAAGACCATGTCTAGGA
1 TTACGTGTAAGACCATGTCTAGGA
29247812 TGTTGGCATT
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
42 26 0.46
43 30 0.54
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.32
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTAGGACAGTAGCATTAATATTTGA
Found at i:29255053 original size:49 final size:49
Alignment explanation
Indices: 29254932--29255168 Score: 305
Period size: 49 Copynumber: 4.8 Consensus size: 49
29254922 TGAGGTCGCA
* * * * *
29254932 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* **
29254983 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* *
29255032 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* *
29255081 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
29255130 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
29255169 GCTTTGGCTA
Statistics
Matches: 164, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
48 1 0.01
49 126 0.77
50 7 0.04
51 30 0.18
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:29258144 original size:30 final size:30
Alignment explanation
Indices: 29258108--29258176 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
29258098 TATCGTATCT
*
29258108 TGGGTTTCTTTA-CTCTGGGTTTCTTTATTC
1 TGGGTTTCTTTATCT-TGGATTTCTTTATTC
*
29258138 TGGGTTTCTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTTATCTTGGATTTCTTTATTC
*
29258168 -GGTTTTCTT
1 TGGGTTTCTT
29258177 GTCATCTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.21
30 25 0.74
31 2 0.06
ACGTcount: A:0.07, C:0.16, G:0.19, T:0.58
Consensus pattern (30 bp):
TGGGTTTCTTTATCTTGGATTTCTTTATTC
Found at i:29258176 original size:14 final size:15
Alignment explanation
Indices: 29258108--29258176 Score: 79
Period size: 15 Copynumber: 4.7 Consensus size: 15
29258098 TATCGTATCT
*
29258108 TGGGTTTCTTTACTC
1 TGGGTTTCTTTATTC
29258123 TGGGTTTCTTTATTC
1 TGGGTTTCTTTATTC
*
29258138 TGGGTTTCTCTA-TC
1 TGGGTTTCTTTATTC
*
29258152 TTGGATTTCTTTATTC
1 -TGGGTTTCTTTATTC
*
29258168 -GGTTTTCTT
1 TGGGTTTCTT
29258177 GTCATCTTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
14 10 0.21
15 35 0.74
16 2 0.04
ACGTcount: A:0.07, C:0.16, G:0.19, T:0.58
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:29266794 original size:40 final size:40
Alignment explanation
Indices: 29266749--29266878 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
29266739 CGGAATACAA
29266749 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
29266789 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
29266829 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
29266869 CCGGATATAA
1 CCGGATATAA
29266879 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:29277759 original size:68 final size:67
Alignment explanation
Indices: 29277687--29277836 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
29277677 CATCATGTGT
* * * *
29277687 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
29277749 ATGTAG
62 ATGTAG
** * *
29277755 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
29277820 AG
66 AG
29277822 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
29277837 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:29277792 original size:64 final size:64
Alignment explanation
Indices: 29277711--29277894 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
29277701 AGACATTATG
* *
29277711 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
29277775 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
29277840 AA
63 AA
* * * *
29277842 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
29277895 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:29282305 original size:34 final size:33
Alignment explanation
Indices: 29282244--29282310 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
29282234 CTATTACTAA
* *
29282244 AATGGGCTAAGGCCCACACTGACACTAATACTGT
1 AATGGGCTAAGGCCCACACCGAAACTAA-ACTGT
*
29282278 AATGGGTTAAGGCCCTA-ACCGAAACTAAACTGT
1 AATGGGCTAAGGCCC-ACACCGAAACTAAACTGT
29282311 TACTAATACG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 5 0.17
34 23 0.79
35 1 0.03
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (33 bp):
AATGGGCTAAGGCCCACACCGAAACTAAACTGT
Found at i:29286646 original size:27 final size:28
Alignment explanation
Indices: 29286587--29286657 Score: 117
Period size: 27 Copynumber: 2.6 Consensus size: 28
29286577 AAATTTGTAC
29286587 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
29286615 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
29286642 GGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
29286658 ACTCACTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:29286667 original size:27 final size:27
Alignment explanation
Indices: 29286611--29286669 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
29286601 GAGTTTGATC
* ** * *
29286611 ATATAGCACTAAGTGTGCGAGTTGATT
1 ATATGGCACTAAGTGTGCGAACTCACT
29286638 ATATGGCACTAAGTGTGCGAACTCACT
1 ATATGGCACTAAGTGTGCGAACTCACT
29286665 ATATG
1 ATATG
29286670 CTTTTGAATC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (27 bp):
ATATGGCACTAAGTGTGCGAACTCACT
Found at i:29292458 original size:43 final size:43
Alignment explanation
Indices: 29292411--29292525 Score: 167
Period size: 43 Copynumber: 2.7 Consensus size: 43
29292401 TCTCTAATTG
* *
29292411 ATGCCAATGTGCCAGACGTGGTCTTACACGATATCTAAAATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGATATCTAAAATCA
* * *
29292454 ATGCCAACGTCCCAGACGTGGTCTTAGACGATATCTCAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGATATCTAAAATCA
* *
29292497 ATACCAACGTCCCAGATGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
29292526 AAATCATATC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGATATCTAAAATCA
Found at i:29296467 original size:40 final size:40
Alignment explanation
Indices: 29296397--29296617 Score: 297
Period size: 40 Copynumber: 5.6 Consensus size: 40
29296387 TATTCGAATG
* *
29296397 ATATCCGAGCTAAGT-CCGAAGGCATTTGTGCTAGTAACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
29296436 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
29296476 AAATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
29296516 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
29296556 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
29296596 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
29296618 TACTTGGGTT
Statistics
Matches: 160, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 30 0.19
40 126 0.79
41 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:29296545 original size:80 final size:80
Alignment explanation
Indices: 29296399--29296617 Score: 343
Period size: 80 Copynumber: 2.8 Consensus size: 80
29296389 TTCGAATGAT
* * **
29296399 ATCCGAGCTAAGT-CCGAAGGCATTTGTGCTAGTAACTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCATT
29296463 TGTGCTATTGACTAA
66 TGTGCTATTGACTAA
* *
29296478 ATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCTTT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCATT
*
29296543 TGTGCTATTGACTAT
66 TGTGCTATTGACTAA
* *
29296558 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
29296618 TACTTGGGTT
Statistics
Matches: 129, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
79 26 0.20
80 103 0.80
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCATT
TGTGCTATTGACTAA
Found at i:29310469 original size:29 final size:29
Alignment explanation
Indices: 29310436--29310566 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
29310426 TGACGAGATC
*
29310436 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
29310465 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
29310494 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
29310523 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
29310552 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
29310567 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Done.